Basic Information

Transcription Factor Domain

TF Family: zf-GAGA
Domain: zf-GAGA domain
PFAM: PF09237
TF Group: Zinc-Coordinating Group
Description: Members of this family bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence [1].
Hmmscan Out: # of c-Evalue i-Evalue score bias hmm coord from hmm coord to ali coord from ali coord to env coord from env coord to acc

1 10 0.033 2.6 8.2 0.0 23 48 4 29 2 33 0.85

2 10 0.00099 0.078 13.1 0.2 21 48 30 57 28 61 0.87

3 10 0.36 28 4.9 0.0 21 44 58 81 55 85 0.91

4 10 0.0013 0.11 12.7 0.1 21 46 86 111 81 118 0.83

5 10 0.97 77 3.5 0.1 21 46 114 139 110 142 0.88

6 10 0.071 5.6 7.1 0.0 21 46 142 167 138 173 0.89

7 10 2.7 2.2e+02 2.1 0.0 21 44 170 193 166 197 0.87

8 10 0.014 1.1 9.4 0.0 21 50 198 227 193 229 0.86

9 10 0.036 2.8 8.1 0.1 21 44 226 249 224 254 0.91

10 10 0.12 9.5 6.4 0.2 21 46 254 279 248 282 0.85

#	of	c-Evalue	i-Evalue	score	bias	hmm coord from	hmm coord to	ali coord from	ali coord to	env coord from	env coord to	acc
1	10	0.033	2.6	8.2	0.0	23	48	4	29	2	33	0.85
2	10	0.00099	0.078	13.1	0.2	21	48	30	57	28	61	0.87
3	10	0.36	28	4.9	0.0	21	44	58	81	55	85	0.91
4	10	0.0013	0.11	12.7	0.1	21	46	86	111	81	118	0.83
5	10	0.97	77	3.5	0.1	21	46	114	139	110	142	0.88
6	10	0.071	5.6	7.1	0.0	21	46	142	167	138	173	0.89
7	10	2.7	2.2e+02	2.1	0.0	21	44	170	193	166	197	0.87
8	10	0.014	1.1	9.4	0.0	21	50	198	227	193	229	0.86
9	10	0.036	2.8	8.1	0.1	21	44	226	249	224	254	0.91
10	10	0.12	9.5	6.4	0.2	21	46	254	279	248	282	0.85

Coding Sequence: ATGGGAAAAAATCCTTTTAAATGTACAATTTGTTCAAAATTATTTAGAATAGAAAGTAATTTAAAAAAACATTTTAGAATTCATACAGGCGAAAAACCTTTTAAATGTAAAATTTGTTGTAAATCATTTACACAATCAAATTCTTTAAAAAGGCATATTAGAATACATACTGGTGAAAAACCTTTTAAGTGCGAAATTTGTTTAGAATCTTTCACAGAATCCAGTGATTTAAAAACACATATTAGAAGTCATACTGGTGAAACTCCTTTTAAATGTGAAATTTGTTCAAAATGTTTTACACAATCAAATTCTTTAAAAAGGCATATTAGAACACACACCGGTGAAAAACCTTTCAGATGCGAATTTTGTTCAAAATGTTTTACAATGCAAAGTAATTTAAAAAAACATATAAGAATTCATACTGGCGAAAAACCTTTTAAATGTAAAATTTGTGAAAAATCTTTCACACAATCCAATTCTTTAAACACACATATTAGAATTCATACTGGTGAAAATCCATTCAAATGCGAATTTTGTTCAAAATCTTTTACAATGCAAAGTAATTTAAAAAAGCATATTAGAACTCACACTGGCGAAAGACCGTTTAAATGTAAAATTTGTGAAAAATCTTTCACACAGTCGAATTCTTTAAAAACGCACATTAAAATTCATACCGGTGAAAAACCTTACAAATGCGAAATTTGTTCAAAATGTTTCACAGAATCGAGAGATTTAAAAATACATATTAGAAGTCACACTGGTGAACACCCTTTTAAATGTGAAATTTGTTCGAAATGTTTCTCAGTACAAAGTAACTTAAAAAAACATATTCGAATTCACACTGGCAAGTGA
Protein Sequence: MGKNPFKCTICSKLFRIESNLKKHFRIHTGEKPFKCKICCKSFTQSNSLKRHIRIHTGEKPFKCEICLESFTESSDLKTHIRSHTGETPFKCEICSKCFTQSNSLKRHIRTHTGEKPFRCEFCSKCFTMQSNLKKHIRIHTGEKPFKCKICEKSFTQSNSLNTHIRIHTGENPFKCEFCSKSFTMQSNLKKHIRTHTGERPFKCKICEKSFTQSNSLKTHIKIHTGEKPYKCEICSKCFTESRDLKIHIRSHTGEHPFKCEICSKCFSVQSNLKKHIRIHTGK

Sequence clustering based on sequence similarity using MMseqs2